Mercurial > repos > biomonika > monika_mpileup

changeset 18:b8955b7521b1 draft

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Uploaded
author biomonika
date Wed, 13 Aug 2014 22:30:34 -0400
parents 46044d94ee63
children 765e16c11fb3
files LINKYX_mpileup_wrapper.xml
diffstat 1 files changed, 22 insertions(+), 0 deletions(-) [+]
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line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/LINKYX_mpileup_wrapper.xml	Wed Aug 13 22:30:34 2014 -0400
@@ -0,0 +1,22 @@
+<tool id="LINKYX_mpileup" name="LINKYX_mpileup">
+      <description>Run mpileup with LINKYX-specific parameters</description>
+      <command interpreter="bash">LINKYX_mpileup_wrapper.sh $output $input $input1</command>
+      <inputs>
+        <param format="bam" name="input" type="data" label="Alignment file"/>
+        <param format="fasta" name="input1" type="data" label="Reference file"/>
+      </inputs>
+      <outputs>
+        <data format="vcf" name="output" />
+      </outputs>
+  
+     <tests>
+       <test>
+        <output name="out_file1" file="alignent_mpileup.txt"/>
+       </test>
+     </tests>
+   
+     <help>
+   This tool tests if primers are present in gorilla female or on human Y or chimp Y chromosome.
+     </help>
+   
+   </tool>
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